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(v3.0.1.9059) Fix WISCA in vignette

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dr. M.S. (Matthijs) Berends
2026-06-23 14:38:59 +02:00
parent 3f9f931777
commit 9898b5df4b
41 changed files with 1310 additions and 757 deletions
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41
man/interpretive_rules.Rd
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@@ -8,21 +8,42 @@
\alias{eucast_dosage}
\title{Apply Interpretive Rules}
\usage{
interpretive_rules(x, col_mo = NULL, info = interactive(),
interpretive_rules(
x,
col_mo = NULL,
info = interactive(),
rules = getOption("AMR_interpretive_rules", default = c("breakpoints",
"expected_phenotypes")), guideline = getOption("AMR_guideline", "EUCAST"),
verbose = FALSE, version_breakpoints = 16,
version_expected_phenotypes = 1.2, version_expertrules = 3.3,
ampc_cephalosporin_resistance = NA, only_sir_columns = any(is.sir(x)),
custom_rules = NULL, overwrite = FALSE, add_if_missing = TRUE, ...)
"expected_phenotypes")),
guideline = getOption("AMR_guideline", "EUCAST"),
verbose = FALSE,
version_breakpoints = 16,
version_expected_phenotypes = 1.2,
version_expertrules = 3.3,
ampc_cephalosporin_resistance = NA,
only_sir_columns = any(is.sir(x)),
custom_rules = NULL,
overwrite = FALSE,
add_if_missing = TRUE,
...
)
eucast_rules(x, col_mo = NULL, info = interactive(),
eucast_rules(
x,
col_mo = NULL,
info = interactive(),
rules = getOption("AMR_interpretive_rules", default = c("breakpoints",
"expected_phenotypes")), ...)
"expected_phenotypes")),
...
)
clsi_rules(x, col_mo = NULL, info = interactive(),
clsi_rules(
x,
col_mo = NULL,
info = interactive(),
rules = getOption("AMR_interpretive_rules", default = c("breakpoints",
"expected_phenotypes")), ...)
"expected_phenotypes")),
...
)
eucast_dosage(ab, administration = "iv", version_breakpoints = 15)
}